M.Sc. in Bioinformatics is a PG course of two years period which focuses on the various features of Bioinformatics that makes use of computer science and information technology in biological as well as medical fields.
They can work as any of the following:
System Analyst
Technical Support
Database Designer / Administrator
Applications Analyst
Bioinformatics Computing Consultant
Bioinformatics Specialist
Programmer
Marketing Department
Bioinformatics Research Scientist
Bioinformatics Java Developer
They have vast opportunities in the government sector.
They can get into such companies by clearing various exams conducted by PSC, SSC and also UPSC.
Top firms recruiting aspirants in this field include the following:


Institute of Mathematical Sciences
Indian Institute of Spices Research

After attainment of sufficient experience in the field and by compliant good skills and knowledge in the field you can earn very good salary packages.
Some Private recruiters:
GVK Biosciences
Dr Reddy’s Laboratories
Biscon
Strand Life Sciences
Celera Genomics
Ranbaxy
CuraGen